Is it possible to describe an if-else structure in a system sequence diagram? If yes, how is this done?
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Yes. This can be done in sequence diagrams. Not only if else,You can show loops, breaks and parallel etc.You have to learn combined fragment which is a sub-type of interaction fragment, to do that.
Here's more info about combined fragments from the VS 2010 sequence diagram documentation:
Yes, this can be done in UML 2 using the 'Alternative' combined fragment type, although personally I find them relatively difficult to read. There is a good example in this IBM DeveloperWorks article.